Provided by: libbio-perl-perl_1.7.2-3_all bug


       Bio::PopGen::Individual - An implementation of an Individual who has Genotype or Sequence


         use Bio::PopGen::Individual;

         my $ind = Bio::PopGen::Individual->new(-unique_id => $id,
                                               -genotypes => \@genotypes);


       This object is a container for genotypes.


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AUTHOR - Jason Stajich



       Matthew Hahn,


       The rest of the documentation details each of the object methods.  Internal methods are
       usually preceded with a _

        Title   : new
        Usage   : my $obj = Bio::PopGen::Individual->new();
        Function: Builds a new Bio::PopGen::Individual object
        Returns : an instance of Bio::PopGen::Individual
        Args    : -unique_id => $id,
                  -genotypes => \@genotypes

        Title   : unique_id
        Usage   : my $id = $individual->unique_id
        Function: Unique Identifier
        Returns : string representing unique identifier
        Args    : string

        Title   : num_of_results
        Usage   : my $count = $person->num_results;
        Function: returns the count of the number of Results for a person
        Returns : integer
        Args    : none

        Title   : annotation
        Usage   : my $annotation_collection = $ind->annotation;
        Function: Get/set a Bio::AnnotationCollectionI for this individual
        Returns : Bio::AnnotationCollectionI object
        Args    : [optional set] Bio::AnnotationCollectionI object

        Title   : add_Genotype
        Usage   : $individual->add_Genotype
        Function: add a genotype value
        Returns : count of the number of genotypes associated with this individual
        Args    : @genotypes - L<Bio::PopGen::GenotypeI> object(s) containing
                               alleles plus a marker name

        Title   : reset_Genotypes
        Usage   : $individual->reset_Genotypes;
        Function: Reset the genotypes stored for this individual
        Returns : none
        Args    : none

        Title   : remove_Genotype
        Usage   : $individual->remove_Genotype(@names)
        Function: Removes the genotypes for the requested markers
        Returns : none
        Args    : Names of markers

        Title   : get_Genotypes
        Usage   : my @genotypes = $ind->get_Genotypes(-marker => $markername);
        Function: Get the genotypes for an individual, based on a criteria
        Returns : Array of genotypes
        Args    : either none (return all genotypes) or
                  -marker => name of marker to return (exact match, case matters)

        Title   : has_Marker
        Usage   : if( $ind->has_Marker($name) ) {}
        Function: Boolean test to see if an Individual has a genotype
                  for a specific marker
        Returns : Boolean (true or false)
        Args    : String representing a marker name

        Title   : get_marker_names
        Usage   : my @names = $individual->get_marker_names;
        Function: Returns the list of known marker names
        Returns : List of strings
        Args    : none